COVID-19 Research Solutions
In several recently published studies, nCounter® gene expression assays such as the immunology panel and inflammation panel were used to describe the dynamic and varied host response that shapes the progression of COVID-19. Building on this success,
NanoString developed the 785-plex Human and mouse host response panel as well as a Coronavirus Panel Plus spike-in, enabling measurement of the SARS-CoV-2 virus, additional human coronaviruses, and the human ACE2 receptor RNA in addition to the measurement of host immune response genes. The Coronavirus Panel Plus can be spiked-in to any gene expression panel, expanding the range of biology that can be studied with COVID-19 samples.
The GeoMxDigital Spatial Profiler (DSP) enables simultaneous high-plex spatial analysis of pathogens and the host response with FFPE and fresh frozen tissue.
The GeoMxCOVID-19 Immune Response Atlas facilitates spatial studies of the SARS-CoV-2 virus and the host response with over 1,800 RNA targets.
The COVID-19 GeoMx-formatted Antibody, developed in partnership with Abcam, is a five-antibody custom protein panel that can be run alongside GeoMxprotein assays. These assays include SARS-CoV-2 viral markers and the ACE2 receptor, among other receptors, proteases, cell markers, and viral response markers, and are available through the GeoMx Technology Access Program.
Prosigna Score / ROR Score:
The ROR Score has been validated to predict the risk of recurrence of disease in ER+ breast cancer after surgery and treatment with 5 years of endocrine therapy. The ROR score depends upon the biology of the intrinsic subtypes, the proliferation score of the tumor, and the tumor size as shown in the equation below:
ROR = aRLumA + bRLumB + cRHer2 + dRBasal + eP + fT
Each of the R variables in the equation above indicate the Pearson correlation coefficient of the PAM50 expression profile for the tumor compared to each of the prototypical centroids for the intrinsic subtypes shown in the heatmap below. P is the proliferation score, which is the average gene expression profile of genes associated with cell-cycle progression and T is the tumor stage.
Figure: Heatmap of PAM50 genes by subtype. Red is higher expression and green is lower expression
nCounter Host Response Panel
The 785-plex nCounter Host Response Panel contains probes for human or mouse genes involved in the host response to pathogens. Best suited for use with blood samples, the Host Response Panel covers the five stages of infection: incubation, prodromal period, peak illness, decline, and convalescence, with probes for genes involved in the innate and adaptive immune response, interferon signaling, host susceptibility, and homeostasis. The panel includes NanoString’s unique immune cell typing signatures for quantifying the relative abundance of 14 different immune cell types, and data from the panel can be easily analyzed in minutes with the nSolver Data Analysis Software or the cloud-based ROSALIND™ by OnRamp BioThe panel is ideally suited for use to study SARS-CoV-2 but can be easily used to study other types of pathogens.
GeoMx DSP COVID-19 Protein and RNA Analysis
Rapidly perform high-plex spatial analyses of the host response in FFPE or fresh frozen tissue using the GeoMx Digital Spatial Profiler (DSP). NanoString’s GeoMx DSP platform enables high-plex protein and RNA experiments in key areas of biology such as molecular response, cellular (immune) response, tissue damage, and drivers of individual susceptibility to severe forms of disease.
The GeoMx COVID-19 Immune Response Atlas, a ~1,850-plex RNA assay, enables spatial studies of the SARS-CoV-2 virus and host response. RNA targets include COVID-19 receptors and proteases, pulmonary alveolar type I and II markers, lung biology markers, viral response markers, and SARS-CoV-2 probes. RNA targets are profiled simultaneously using the GeoMx DSP and an Illumina next-generation sequencer (NGS) for readout. Users can run ACD RNAscope™ probes alongside GeoMx RNA probes to identify regions of interest.
A five-antibody custom, ready-to-go protein panel, with receptor, protease, and viral markers is available through the GeoMx Technology Access Program or for order through Abcam. This COVID-19 GeoMx-formatted Antibody is run with the 20-plex GeoMx Immune Cell Profiling Core (plus controls) with readout on the nCounter Analysis System. Users can add up to six 10-plex modules including the Immune Activation Status, Immune Cell Typing, and/or Cell Death modules to more deeply profile proteins involved in T cell activation and cell death. NanoString scientists can recommend commercially-available markers for lung epithelium, nasal epithelium, immune response markers, and the viral spike protein.
AUTOIMMUNE DISEASE AND CHRONIC INFLAMMATORY DISEASE COVERAGE
Chronic inflammatory disorder that impacts the lining of joints.
Chronic inflammatory of the digestive tract.
Autoimmune disease is where the immune system mistakenly attacks the insulin-producing cells of the pancreas
Demyelinating disease that disrupts communication with the nervous system.
Immune-mediated disease that causes skin cells to rapidly build up on the surface of the skin
Certain treatments and infections have been reported to interfere with the immune system and induce a series of autoimmune disease or adverse immune-related events.
Chronic inflammatory disease that manifests systematically throughout the body.
Inflammatory Bowel Disease
Type 1 Diab
Type 1 Diabetes
Systematic Lupus Erythematosus
Induced Adverse Immune Events
Immune Checkpoint Coverage
Pathways Regulating Glia
(178/180 Hs/Mm Genes)
Inflammation & Peripheral Immune Invasion
(187/188 Hs/Mm Genes)
Cell Stress & Damage Response
(127/134 Hs/Mm Genes)
NO Metabolism and Signaling
Oxidative & Nitrosative Stress
MAPK & PI3K
Antigen Processing & Presentation
The eight essential components of stem cell biology
Stem Cell Renewal:
Stem Cell Prolifiration
PSC Pluripotency Markers and Regulators
Naive State/Primed State
Histone Acetylation & Methylation
Oxidative Stress Response
Amino Acid Metabolism
Fatty Acid Metabolism
Differentiation Signaling and Pathways:
HOX Gene Activation
Endodermal /Ectodermal /Mesodermal Lineage Markers
Key Somatic Cell Types
Custom & Clinical Products
Daily Sample Throughput
Self-assembled, interchangeable probes, optimized for smaller validation projects with maximum flexibility
Self-assembled, interchangeable probes for high-throughput, sample multiplexing projects
User-designed, turn-key solution that comes ready-to-use
mRNA, CNV, Fusions
mRNA, miRNA, CNV, Fusions
Cell line drug screen, biomarker development, infectious disease
Gene Signature Development
Model Organism, Microbes, Agriculture
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